AUTHOR=Wright Kevin M. , Sood Pranidhi , Zemlemerova Elena D. , Kostin Danila S. , Fong Nicole L. , Yi Nelda , Ireland Andrea T. , Lam Irene , Hardell-Lewis Kaitlyn N. , Smith Megan , Villalta Jackie , Jan Calvin H. , Roy Margaret A. , Botstein David , Lavrenchenko Leonid A. , Ruby J. Graham , Buffenstein Rochelle 

TITLE=Geographic distribution of genetic diversity of Heterocephalus glaber analyzed using whole genome sequencing and a chromosome-scale genome assembly

JOURNAL=Frontiers in Ecology and Evolution

VOLUME=Volume 13 - 2025

YEAR=2025

URL=https://www.frontiersin.org/journals/ecology-and-evolution/articles/10.3389/fevo.2025.1689079

DOI=10.3389/fevo.2025.1689079

ISSN=2296-701X

ABSTRACT=Naked mole-rats (Heterocephalus glaber) are a species of rodent endemic to the Horn of Africa, notable among mammals for their long lifespans, resistance to a variety of stresses, and eusocial mating behavior. Although their natural range extends across large portions of Kenya, Ethiopia, Somalia, and Djibouti, the large majority of genetic and genomic analyses focus on Kenyan specimens. Here, we constructed a chromosome-scale reference genome assembly for H. glaber, along with new reference assemblies of both the Damaraland mole-rat (Fukomys damarensis) and guinea pig (Cavia porcellus) genomes to aid annotation. We leveraged our H. glaber assembly, along with modern whole-genome sequencing, to characterize the genetic diversity of specimens derived from Kenya, southern Ethiopia, and eastern Ethiopia. We found the Kenyan and southern Ethiopian specimens to be closely related to each other and highly diverged from eastern Ethiopian specimens. We also found specimens collected from nearby locations in southern Ethiopia to be more closely related to Kenyan specimens than to each other. This unexpected distribution of shared genetic diversity highlights the importance of local migration barriers to gene flow in wild H. glaber populations.